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changeset 6:ec16dae84230

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Fix tests for SnpSift caseControl and intervals
author Jim Johnson <jj@umn.edu>
date Tue, 26 Mar 2013 15:24:30 -0500
parents 192a236898f5
children b26a1aff7f81
files snpSift_caseControl.xml snpSift_int.xml
diffstat 2 files changed, 4 insertions(+), 7 deletions(-) [+]
line wrap: on
line diff
--- a/snpSift_caseControl.xml	Mon Mar 25 08:51:33 2013 -0500
+++ b/snpSift_caseControl.xml	Tue Mar 26 15:24:30 2013 -0500
@@ -45,8 +45,7 @@
                 <param name="caseControStr" value="--"/>
                 <output name="output">
                     <assert_contents>
-                        <has_text text="Cases=0,0,0;" />
-                        <has_text text="Controls=0,0,0;" />
+                        <has_text text="CaseControl=0/0,0/2;" />
                     </assert_contents>
                 </output>
             </test>
@@ -58,8 +57,7 @@
                 <param name="caseControStr" value="--"/>
                 <output name="output">
                     <assert_contents>
-                        <has_text text="Cases=0,0,0;" />
-                        <has_text text="Controls=2,0,4;" />
+                        <has_text text="CaseControl=0/0,2/0;" />
                     </assert_contents>
                 </output>
             </test>
@@ -71,8 +69,7 @@
                 <param name="caseControStr" value="-+"/>
                 <output name="output">
                     <assert_contents>
-                        <has_text text="Cases=1,0,2;" />
-                        <has_text text="Controls=1,0,2;" />
+                        <has_text text="CaseControl=1/0,1/0;" />
                     </assert_contents>
                 </output>
             </test>
--- a/snpSift_int.xml	Mon Mar 25 08:51:33 2013 -0500
+++ b/snpSift_int.xml	Tue Mar 26 15:24:30 2013 -0500
@@ -24,7 +24,7 @@
         <tests>
             <test>
                 <param name="input" ftype="vcf" value="annotate_5.vcf"/>
-                <param name="bed" ftype="bed" value="interval.bed"/>
+                <param name="bedFile" ftype="bed" value="interval.bed"/>
                 <output name="output">
                     <assert_contents>
                         <has_text text="872687" />